@Test(dataProvider = "levels") public void testOptionsImplicit(MetadataLevel level) throws IOException, FormatException { FileStitcher fs = new FileStitcher(); fs.getMetadataOptions().setMetadataLevel(level); fs.setId("test_z<0-2>.fake"); for (IFormatReader r: fs.getUnderlyingReaders()) { assertEquals(r.getMetadataOptions().getMetadataLevel(), level); } fs.close(); }
public ExternalSeries(FilePattern pattern) throws FormatException, IOException { this.pattern = pattern; files = this.pattern.getFiles(); int nReaders = files.length > MAX_READERS ? 1 : files.length; readers = new DimensionSwapper[nReaders]; for (int i=0; i<readers.length; i++) { if (classList != null) { readers[i] = new DimensionSwapper(new ImageReader(classList)); } else readers[i] = new DimensionSwapper(); readers[i].setMetadataOptions(getMetadataOptions()); readers[i].setGroupFiles(false); } readers[0].setId(files[0]); ag = new AxisGuesser(this.pattern, readers[0].getDimensionOrder(), readers[0].getSizeZ(), readers[0].getSizeT(), readers[0].getSizeC(), readers[0].isOrderCertain()); blankThumbBytes = new byte[FormatTools.getPlaneSize(readers[0], readers[0].getThumbSizeX(), readers[0].getThumbSizeY())]; originalOrder = readers[0].getDimensionOrder(); imagesPerFile = readers[0].getImageCount(); }
public ExternalSeries(FilePattern pattern) throws FormatException, IOException { this.pattern = pattern; files = this.pattern.getFiles(); int nReaders = files.length > MAX_READERS ? 1 : files.length; readers = new DimensionSwapper[nReaders]; for (int i=0; i<readers.length; i++) { if (classList != null) { readers[i] = new DimensionSwapper(new ImageReader(classList)); } else readers[i] = new DimensionSwapper(); readers[i].setMetadataOptions(getMetadataOptions()); readers[i].setGroupFiles(false); } readers[0].setId(files[0]); ag = new AxisGuesser(this.pattern, readers[0].getDimensionOrder(), readers[0].getSizeZ(), readers[0].getSizeT(), readers[0].getSizeC(), readers[0].isOrderCertain()); blankThumbBytes = new byte[FormatTools.getPlaneSize(readers[0], readers[0].getThumbSizeX(), readers[0].getThumbSizeY())]; originalOrder = readers[0].getDimensionOrder(); imagesPerFile = readers[0].getImageCount(); }